I've setup some filters to have messages from specific senders to be sent to specific folders. When i did run on selected everything worked fine, but now that new messages are coming in, they aren't being sent to their new folders.

If you have messages coming in that should have been filtered, but were not, please try to run that filter manually on exactly those messages that were not filtered, to see if it will filter them or not.
(Chances are that while all those messages would have been filtered out by that filter, some of them might match one of the preceding filters thus don't have a chance to be filtered by the later one.)

Couldn't think of anything else so far. If unresolved, please turn to support (through menu Help > Email support).

MonBidoux wrote:I tried it manually and it worked.Will have to wait now for new messages and see if it works manually?

Not sure if I expressed myself well, what I wanted to have covered was the small difference between these two cases:
When you tried it manually, was it
a] right after you created that filter, on messages that were present in folder before the filter was created and enabled
or
b] on messages, that were downloaded after filter was enabled, but the filter for some reason didn't process these messages in automatic mode, yet it processed them when run manually

If it ever reappears, let us know. Best way is through helpdesk so that it can be checked on your config (if you send through menu Help > Email support), and also with message enclosed if possible (Message > Forward as Attachment).

Most common cause for any filter related problems are:
- too many filters that lead to complete mess, particularly with filter precedence and duplicate filtering rules etc.
- filter precedence: if one filter moves the message somewhere, the following filters have no effect. Thus eg. you might have a no. 1 rule in the list a rule to delete all messages with some spamword in the subject, but if friend sends a joke message with a spamword in the subject, it gets deleted before filtering arrives to the rule that says "move message to Friends folder".